ABSTRACT: Toxicity and trophic transfer of Cu from sediments along the aquatic food chain with oligochaetes (Lumbriculus variegatus) and zebrafish (Danio rerio)
Project description:Metal oxide nanoparticles can exert adverse effects on humans and aquatic organisms. However, the toxic effects and mechanisms of MO-NPs are not clearly understood.We investigated the toxic effects and mechanisms of copper oxide, zinc oxide, and nickel oxide nanoparticles in Danio rerio using microarray analysis.
Project description:Perfluorobutanoic acid (PFBA) is a short-chain polyfluoroalkyl substance (PFAS) that is measurable in fish tissues and environmental matrices. Previous studies suggest that there are adverse effects on animal and human health following exposure to PFBA, however the mechanisms underlying the toxicity are not well characterized. This study measured biological responses (developmental, transcriptome, and behavioral responses) of zebrafish (wild-type AB strain, Danio rerio) following exposure to a range of PFBA concentrations (0.1-100 µl/L). To further elucidate putative mechanisms related to locomotor abnormalities by PFBA, RNA-seq was conducted. These data shed new mechanistic light onto the sublethal effects of lesser studied short chain perfluorinated chemicals.
Project description:Hepatic gene expression profiling in male Zebrafish in response to estradiol exposure and aquatic xenobiotics 17alpha-ethynylestradiol, Bis(2-ethylhexyl) phthalate and nonylphenol. Male zebrafish (Danio rerio) were purchased from commercial fish farm (Euroaquarium Spa Bologna, Italy). Approximately one hundred and twenty fish were received and divided evenly between three 80 l glass aquaria. Each aquarium was individually heated
Project description:Imatinib mesylate (IM) a protein kinase inhibitor drug that selectively inhibits certain oncogenic mutant protein tyrosine kinases. After application, IM is via hospital and municipal waste water effluents released into the aquatic environment, where it can harm non-target organisms. The aim of this study was to evaluate changes in gene transcription in liver of adult F1 zebrafish (Danio rerio) continuously exposed to IM at environmentaly relevant concentrations of 0.01 µg/L and 1 µg/L.
Project description:Tritium is an ubiquist radionuclide which can be found in the environment due to natural and anthropogenic activities, particularly in aquatic ecosystems. In this context, tritium effects on aquatic species such as fish have to be characterized. HTO (tritiated water) effects were therefore investigated in zebrafish, Danio rerio, a common model in toxicology and ecotoxicology with a fully sequenced genome. Experiments were conducted on early life stages. Larvae were exposed to 0.4 and 4 mGy/h of HTO until 10 days post fertilization. Tritium internalization was quantified and effects were investigated using a proteomic analysis. The global analysis of the proteome was performed after protein extraction at 7 and 10 dpf on zebrafish eggs exposed from 3 hpf to 10 dpf.
Project description:The aim of this mRNA expression profiling experiment was to screen for ecotoxicogenomic fingerprints in zebrafish (Danio rerio) embryos as aquatic vertebrate non-target model exposed to sublethal concentrations of 4-methyl-3-deoxy-1,9,12-trihydroxyestra-1,3,5(10)7-tetraene-6,17-dione (MDTETD) and 12β-trihydroxy-androsta-4,6-diene-3,17-dione (THADD). MDTETD and THADD both are degradation products of bile salts, which are steroid compounds from the digestive tracts of vertebrates, which enter the environment upon excretion, e.g. in manure.
Project description:Bekaert2012 - Reconstruction of D.rerio Metabolic Network
Danio rerio
metabolic model accounting for subcellular compartmentalisation (ZebraGEM)
This SBML representation of the D. rerio
(zebrafish) metabolic network is made available under the Creative Commons Attribution-Share Alike 3.0 Unported Licence (see www.creativecommons.org
).
This model is described in the article:
Reconstruction of Danio rerio Metabolic Model Accounting for Subcellular Compartmentalisation.
Bekaert M.
PLoS One. 2012;7(11):e49903.
Abstract:
Plant and microbial metabolic engineering is commonly used in the production of functional foods and quality trait improvement. Computational model-based approaches have been used in this important endeavour. However, to date, fish metabolic models have only been scarcely and partially developed, in marked contrast to their prominent success in metabolic engineering. In this study we present the reconstruction of fully compartmentalised models of the Danio rerio (zebrafish) on a global scale. This reconstruction involves extraction of known biochemical reactions in D. rerio for both primary and secondary metabolism and the implementation of methods for determining subcellular localisation and assignment of enzymes. The reconstructed model (ZebraGEM) is amenable for constraint-based modelling analysis, and accounts for 4,988 genes coding for 2,406 gene-associated reactions and only 418 non-gene-associated reactions. A set of computational validations (i.e., simulations of known metabolic functionalities and experimental data) strongly testifies to the predictive ability of the model. Overall, the reconstructed model is expected to lay down the foundations for computational-based rational design of fish metabolic engineering in aquaculture.
This model is hosted on BioModels Database
and identified by: MODEL1204120000
.
To cite BioModels Database, please use: BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. PMID: 20587024
.
To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to [CC0 Public Domain Dedication>http://creativecommons.org/publicdomain/zero/1.0/] for more information.
